Status
The Paulinella micropora KR01 genome sequence and gene models were not determined by the Joint Genome Institute (JGI), but were downloaded from Rutgers on October 26, 2022. In order to ensure this genome is comparable to those sequenced by the JGI, we applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, 4) alleles on secondary scaffolds and 5) unsupported short models. This resulted in the removal of 17035 models and the generation of the FilteredModels1 (GeneCatalog) gene track. All published models are available in the ExternalModels track. Please note that this copy of the genome is not maintained by Rutgers and is therefore not automatically updated. In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to the genes.
Genome Assembly | |
Genome Assembly size (Mbp) | 707.12 |
Sequencing read coverage depth | |
# of contigs | 7048 |
# of scaffolds | 7048 |
# of scaffolds >= 2Kbp | 7048 |
Scaffold N50 | 1555 |
Scaffold L50 (Mbp) | 0.14 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 0.95, 0.80, 0.74 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 12229 | 5952 |
transcript | 1786 | 1215 |
exon | 133 | 69 |
intron | 841 | 393 |
description: | ||
protein length (aa) | 595 | 405 |
exons per gene | 13.45 | 9 |
# of gene models | 15326 |
Genome Reference(s)
Lhee D, Lee J, Ettahi K, Cho CH, Ha JS, Chan YF, Zelzion U, Stephens TG, Price DC, Gabr A, Nowack ECM, Bhattacharya D, Yoon HS
Amoeba Genome Reveals Dominant Host Contribution to Plastid Endosymbiosis.
Mol Biol Evol. 2021 Jan 23;38(2):344-357. doi: 10.1093/molbev/msaa206
Links
- JGI PhyloGroup Portals: Rhizaria Cercozoa Paulinellidae
- JGI EcoGroup Portal: Algae